CPF_2024 protein (Clostridium perfringens ATCC 13124)

Nodes:

Network nodes represent proteins

splice isoforms or post-translational modifications are collapsed, i.e. each node represents all the proteins produced by a single, protein-coding gene locus.

Node Color

colored nodes:
query proteins and first shell of interactors

white nodes:
second shell of interactors

Node Content

empty nodes:
proteins of unknown 3D structure

filled nodes:
a 3D structure is known or predicted

Edges:

Edges represent protein-protein associations

associations are meant to be specific and meaningful, i.e. proteins jointly contribute to a shared function; this does not necessarily mean they are physically binding to each other.

Knowledge-based Evidence

from curated databases

textmining

Assay-based Predictions

experimentally determined

co-expression

Genomic Predictions

gene neighborhood

gene co-occurrence

gene fusions

Your Input:

Neighborhood

Gene fusion

Co-occurrence

Co-expression

Experiments

Databases

Textmining

[Homology]

Score

CPF_2024

Peptidase, U32 family; Identified by match to protein family HMM PF01136. (409 aa)

Predicted Functional Partners:

CPF_2025

0.943

udk

0.873

mltG

0.817

CPF_2022

0.646

typA

0.620

CPF_2021

0.569

rnj

0.494

pilT

0.474

CPF_2029

0.458

CPF_2030

0.451

Your Current Organism:

Clostridium perfringens ATCC 13124

NCBI taxonomy Id: 195103
Other names: C. perfringens ATCC 13124, Clostridium perfringens str. ATCC 13124, Clostridium perfringens strain ATCC 13124

Export your current network:

... as a bitmap image:

download

file format is 'PNG': portable network graphic

... as a high-resolution bitmap:

download

same PNG format, but at higher resolution

... as a vector graphic:

download

SVG: scalable vector graphic - can be opened and edited in Illustrator, CorelDraw, Dia, etc.

... as short tabular text output:

download

TSV: tab separated values - can be opened in Excel and Cytoscape (lists only one-way edges: A-B)

... as tabular text output:

download

TSV: tab separated values - can be opened in Excel (lists reciprocal edges: A-B,B-A)

... as an XML summary:

download

structured XML interaction data, according to the 'PSI-MI' data standard

... protein node degrees:

download

node degree of proteins in your network (given the current score cut-off)

... network coordinates:

download

a flat-file format describing the coordinates and colors of nodes in the network

... protein sequences:

download

MFA: multi-fasta format - containing the aminoacid sequences in the network

... protein annotations:

download

a tab-delimited file describing the names, domains and descriptions of proteins in your network

... functional annotations:

download

a tab-delimited file containing all known functional terms of proteins in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
CPF_2021	CPF_2022	CPF_2021	CPF_2022	RNA polymerase sigma-70 factor family; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released.	Putative penicillin-binding protein; Identified by match to protein family HMM PF00905.	0.755
CPF_2021	CPF_2024	CPF_2021	CPF_2024	RNA polymerase sigma-70 factor family; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released.	Peptidase, U32 family; Identified by match to protein family HMM PF01136.	0.569
CPF_2021	CPF_2025	CPF_2021	CPF_2025	RNA polymerase sigma-70 factor family; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released.	Identified by match to protein family HMM PF01596; match to protein family HMM PF08241.	0.569
CPF_2021	CPF_2029	CPF_2021	CPF_2029	RNA polymerase sigma-70 factor family; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released.	Transcriptional regulator, Fur family; Identified by match to protein family HMM PF01475; Belongs to the Fur family.	0.411
CPF_2021	mltG	CPF_2021	CPF_2026	RNA polymerase sigma-70 factor family; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released.	Conserved hypothetical protein TIGR00247; Functions as a peptidoglycan terminase that cleaves nascent peptidoglycan strands endolytically to terminate their elongation.	0.559
CPF_2021	pilT	CPF_2021	CPF_2020	RNA polymerase sigma-70 factor family; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released.	Twitching motility protein PilT; Identified by match to protein family HMM PF00437; match to protein family HMM TIGR01420.	0.606
CPF_2021	rnj	CPF_2021	CPF_2028	RNA polymerase sigma-70 factor family; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released.	RNA-metabolising metallo-beta-lactamase family protein; An RNase that has 5'-3' exonuclease and possibly endonuclease activity. Involved in maturation of rRNA and in some organisms also mRNA maturation and/or decay.	0.427
CPF_2021	typA	CPF_2021	CPF_2027	RNA polymerase sigma-70 factor family; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released.	GTP-binding protein TypA; Identified by match to protein family HMM PF00009; match to protein family HMM PF00679; match to protein family HMM PF03144; match to protein family HMM TIGR00231; match to protein family HMM TIGR01394.	0.471
CPF_2021	udk	CPF_2021	CPF_2023	RNA polymerase sigma-70 factor family; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released.	Uridine kinase; Identified by similarity to SP:O32033; match to protein family HMM PF00485; match to protein family HMM TIGR00235.	0.569
CPF_2022	CPF_2021	CPF_2022	CPF_2021	Putative penicillin-binding protein; Identified by match to protein family HMM PF00905.	RNA polymerase sigma-70 factor family; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released.	0.755
CPF_2022	CPF_2024	CPF_2022	CPF_2024	Putative penicillin-binding protein; Identified by match to protein family HMM PF00905.	Peptidase, U32 family; Identified by match to protein family HMM PF01136.	0.646
CPF_2022	CPF_2025	CPF_2022	CPF_2025	Putative penicillin-binding protein; Identified by match to protein family HMM PF00905.	Identified by match to protein family HMM PF01596; match to protein family HMM PF08241.	0.646
CPF_2022	CPF_2029	CPF_2022	CPF_2029	Putative penicillin-binding protein; Identified by match to protein family HMM PF00905.	Transcriptional regulator, Fur family; Identified by match to protein family HMM PF01475; Belongs to the Fur family.	0.425
CPF_2022	CPF_2030	CPF_2022	CPF_2030	Putative penicillin-binding protein; Identified by match to protein family HMM PF00905.	Conserved hypothetical protein; Identified by similarity to PIR:D97107; match to protein family HMM PF06949; Belongs to the UPF0473 family.	0.420
CPF_2022	mltG	CPF_2022	CPF_2026	Putative penicillin-binding protein; Identified by match to protein family HMM PF00905.	Conserved hypothetical protein TIGR00247; Functions as a peptidoglycan terminase that cleaves nascent peptidoglycan strands endolytically to terminate their elongation.	0.706
CPF_2022	pilT	CPF_2022	CPF_2020	Putative penicillin-binding protein; Identified by match to protein family HMM PF00905.	Twitching motility protein PilT; Identified by match to protein family HMM PF00437; match to protein family HMM TIGR01420.	0.543
CPF_2022	rnj	CPF_2022	CPF_2028	Putative penicillin-binding protein; Identified by match to protein family HMM PF00905.	RNA-metabolising metallo-beta-lactamase family protein; An RNase that has 5'-3' exonuclease and possibly endonuclease activity. Involved in maturation of rRNA and in some organisms also mRNA maturation and/or decay.	0.447
CPF_2022	typA	CPF_2022	CPF_2027	Putative penicillin-binding protein; Identified by match to protein family HMM PF00905.	GTP-binding protein TypA; Identified by match to protein family HMM PF00009; match to protein family HMM PF00679; match to protein family HMM PF03144; match to protein family HMM TIGR00231; match to protein family HMM TIGR01394.	0.509
CPF_2022	udk	CPF_2022	CPF_2023	Putative penicillin-binding protein; Identified by match to protein family HMM PF00905.	Uridine kinase; Identified by similarity to SP:O32033; match to protein family HMM PF00485; match to protein family HMM TIGR00235.	0.646
CPF_2024	CPF_2021	CPF_2024	CPF_2021	Peptidase, U32 family; Identified by match to protein family HMM PF01136.	RNA polymerase sigma-70 factor family; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released.	0.569